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Center for Computational Systems Medicine
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FusionGeneSummary

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FusionProtFeature

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FusionGeneSequence

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FusionGenePPI

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RelatedDrugs

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RelatedDiseases

Fusion gene ID: 31442

FusionGeneSummary for RNF144B_LYRM4

check button Fusion gene summary
Fusion gene informationFusion gene name: RNF144B_LYRM4
Fusion gene ID: 31442
HgeneTgene
Gene symbol

RNF144B

LYRM4

Gene ID

255488

57128

Gene namering finger protein 144BLYR motif containing 4
SynonymsIBRDC2|PIR2|bA528A10.3|p53RFPC6orf149|CGI-203|COXPD19|ISD11
Cytomap

6p22.3

6p25.1

Type of geneprotein-codingprotein-coding
DescriptionE3 ubiquitin-protein ligase RNF144BIBR domain containing 2IBR domain-containing protein 2p53-inducible RING finger proteinLYR motif-containing protein 4homolog of yeast Isd11mitochondrial matrix Nfs1 interacting protein
Modification date2018052320180519
UniProtAcc

Q7Z419

Q9HD34

Ensembl transtripts involved in fusion geneENST00000429054, ENST00000259939, 
ENST00000486622, 		ENST00000330636, 
ENST00000468929, ENST00000464010, 
ENST00000480566, ENST00000500576, 
ENST00000606472, 
Fusion gene scores* DoF score4 X 2 X 4=327 X 2 X 4=56
# samples 47
** MAII scorelog2(4/32*10)=0.321928094887362
effective Gene in Pan-Cancer Fusion Genes (eGinPCFGs).
DoF>8 and MAII>0		log2(7/56*10)=0.321928094887362
effective Gene in Pan-Cancer Fusion Genes (eGinPCFGs).
DoF>8 and MAII>0
Context

PubMed: RNF144B [Title/Abstract] AND LYRM4 [Title/Abstract] AND fusion [Title/Abstract]

Functional or gene categories assigned by FusionGDB annotation
* DoF score (Degree of Frequency) = # partners X # break points X # cancer types
** MAII score (Major Active Isofusion Index) = log2(# samples/DoF score*10)

check button Gene ontology of each fusion partner gene with evidence of Inferred from Direct Assay (IDA) from Entrez
PartnerGeneGO IDGO termPubMed ID
HgeneRNF144B

GO:0006511

ubiquitin-dependent protein catabolic process

12853982

HgeneRNF144B

GO:0043066

negative regulation of apoptotic process

20300062


check button Fusion gene information from three resources
(ChiTars (NAR, 2018), tumorfusions (NAR, 2018), Gao et al. (Cell, 2018))
* All genome coordinats were lifted-over on hg19.
* Click on the break point to see the gene structure around the break point region using the UCSC Genome Browser.
Data typeSourceCancer typeSampleHgeneHchrHbpHstrandTgeneTchrTbpTstrand
TCGARVBRCATCGA-A8-A0AD-01ARNF144Bchr6

18399930

+LYRM4chr6

5109725

-
* LD: Li Ding group's fusion gene list
  RV: Roel Verhaak group's fusion gene list
  ChiTaRs fusion database

check button Open reading frame (ORF) analsis of fusion genes based on Ensembl gene isoform structure.
* Click on the break point to see the gene structure around the break point region using the UCSC Genome Browser.
ORFHenstTenstHgeneHchrHbpHstrandTgeneTchrTbpTstrand
intron-3CDSENST00000429054ENST00000330636RNF144Bchr6

18399930

+LYRM4chr6

5109725

-
intron-3CDSENST00000429054ENST00000468929RNF144Bchr6

18399930

+LYRM4chr6

5109725

-
intron-3UTRENST00000429054ENST00000464010RNF144Bchr6

18399930

+LYRM4chr6

5109725

-
intron-intronENST00000429054ENST00000480566RNF144Bchr6

18399930

+LYRM4chr6

5109725

-
intron-intronENST00000429054ENST00000500576RNF144Bchr6

18399930

+LYRM4chr6

5109725

-
intron-intronENST00000429054ENST00000606472RNF144Bchr6

18399930

+LYRM4chr6

5109725

-
Frame-shiftENST00000259939ENST00000330636RNF144Bchr6

18399930

+LYRM4chr6

5109725

-
In-frameENST00000259939ENST00000468929RNF144Bchr6

18399930

+LYRM4chr6

5109725

-
5CDS-3UTRENST00000259939ENST00000464010RNF144Bchr6

18399930

+LYRM4chr6

5109725

-
5CDS-intronENST00000259939ENST00000480566RNF144Bchr6

18399930

+LYRM4chr6

5109725

-
5CDS-intronENST00000259939ENST00000500576RNF144Bchr6

18399930

+LYRM4chr6

5109725

-
5CDS-intronENST00000259939ENST00000606472RNF144Bchr6

18399930

+LYRM4chr6

5109725

-
3UTR-3CDSENST00000486622ENST00000330636RNF144Bchr6

18399930

+LYRM4chr6

5109725

-
3UTR-3CDSENST00000486622ENST00000468929RNF144Bchr6

18399930

+LYRM4chr6

5109725

-
3UTR-3UTRENST00000486622ENST00000464010RNF144Bchr6

18399930

+LYRM4chr6

5109725

-
3UTR-intronENST00000486622ENST00000480566RNF144Bchr6

18399930

+LYRM4chr6

5109725

-
3UTR-intronENST00000486622ENST00000500576RNF144Bchr6

18399930

+LYRM4chr6

5109725

-
3UTR-intronENST00000486622ENST00000606472RNF144Bchr6

18399930

+LYRM4chr6

5109725

-

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FusionProtFeatures for RNF144B_LYRM4


check buttonMain function of each fusion partner protein. (from UniProt)
HgeneTgene
RNF144B

Q7Z419

LYRM4

Q9HD34

E3 ubiquitin-protein ligase which accepts ubiquitin fromE2 ubiquitin-conjugating enzymes UBE2L3 and UBE2L6 in the form ofa thioester and then directly transfers the ubiquitin to targetedsubstrates such as LCMT2, thereby promoting their degradation.Induces apoptosis via a p53/TP53-dependent but caspase-independentmechanism. However, its overexpression also produces a decrease ofthe ubiquitin-dependent stability of BAX, a pro-apoptotic protein,ultimately leading to protection of cell death; But, it is not ananti-apoptotic protein per se. {ECO:0000269|PubMed:12853982,ECO:0000269|PubMed:20300062}. Required for nuclear and mitochondrial iron-sulfurprotein biosynthesis. {ECO:0000269|PubMed:17331979,ECO:0000269|PubMed:19454487}.

check buttonRetention analysis result of each fusion partner protein across 39 protein features of UniProt such as six molecule processing features, 13 region features, four site features, six amino acid modification features, two natural variation features, five experimental info features, and 3 secondary structure features. Here, because of limited space for viewing, we only show the protein feature retention information belong to the 13 regional features. All retention annotation result can be downloaded at

download page

.

* Minus value of BPloci means that the break pointn is located before the CDS.
- In-frame and retained protein feature among the 13 regional features.
PartnerGeneHbpTbpENSTStrandBPexonTotalExonProtein feature loci*BPlociTotalLenProtein featureProtein feature note

- In-frame and not-retained protein feature among the 13 regional features.
PartnerGeneHbpTbpENSTStrandBPexonTotalExonProtein feature loci*BPlociTotalLenProtein featureProtein feature note


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FusionGeneSequence for RNF144B_LYRM4


check button For in-frame fusion transcripts, we provide the fusion transcript sequences and fusion amino acid sequences.
(nt: nucleotides, aa: amino acids)

* Fusion amino acid sequences.
>In-frame_RNF144B_ENST00000259939_chr6_18399930_+_LYRM4_ENST00000468929_chr6_5109725_-_67aa


* Fusion transcript sequences (only coding sequence (CDS) region).
>In-frame_RNF144B_ENST00000259939_chr6_18399930_+_LYRM4_ENST00000468929_chr6_5109725_-_202nt
ATGGGCTCAGCTGGTAGGCTCCACTATCTCGCCATGACTGCTGAAAATCCCACTCCTGGAGACCTGGCTCCGGCCCCCCTCATCACTTGC
AAACTCTGCCTGTGTGAGCAGTCTCTGGACAAGATGACCACACTCCAGGAATGCCAGTGCATCTTTTGCACAGCTGTCCACATTGGCCAA


* Fusion transcript sequences (Full-length transcript).
>In-frame_RNF144B_ENST00000259939_chr6_18399930_+_LYRM4_ENST00000468929_chr6_5109725_-_1555nt
GAGCTGTGCCCCACGCTCCCGCTGCAACAGTCCCGGGCATCGCAGCTGCCAGTCAAGGCTAGGAGGCGGTCGGGGACTCCGCCTCCTCCC
GACCCGTAGGTCTGGGAGCGCAAGTCCTGTTGCAGTCTTGCAAAGTGTAAAGCTGTCAGCCGCAGAGCACGGAGGAAAGACGGAGAGAAT
GGAAGAGCTCCTGTCCGGTGTGCCAGCAGCCCGGACTGGCGGTGAGCGCGAGGGAGGCTACTGAGAAGCCCGGCGACGGAGGAACGCAGG
TCTGCTGCCAGGGATTGAGGAGACTGAAGAATGCTGAAGACAGGCTGATGGGCTCAGCTGGTAGGCTCCACTATCTCGCCATGACTGCTG
AAAATCCCACTCCTGGAGACCTGGCTCCGGCCCCCCTCATCACTTGCAAACTCTGCCTGTGTGAGCAGTCTCTGGACAAGATGACCACAC
TCCAGGAATGCCAGTGCATCTTTTGCACAGCTGTCCACATTGGCCAACTGTATTCAACTGACAAGCTGATCATTGAGAATCGAGACATGC
CCAGGACCTAGCAAGCCGGGGACCAGCCACCAGTGGCGGCCAGGGACCACCTTCAGCATCCACTCTCTGTTTGAGATGGGGGCTCCCAAA
ACCAGCTTACAATAGCCTTTTGCGCTGCCTGTCCTGTGGGAGCTGATAAACCAAGTCACATTTGCATTCTGTTGCAGGCTTAGTGAAAAA
GGACTGCTGTCTTTCCTTGGTTCAAGTGTTAGAATGGAGAGCTGGAGTTCGTTCAGAATAGTGCTGTGTGTTACCACGTCTCCCCTGCAC
CCCATTCCTACCTTGTAGCTCATGACCATTGTGTATAGCATTTCTACACTTTGTTTCTTGGTCCTTGGCAATAAAAAGAATGATCTCCCT
GAGCCTTTGACCCCAGATAAACCCCTCCCAATTAATGCATTTTCATTTCCTACTGATACAAGGCCTGGAGAGGGCTGTTGGGGGCCCTCA
GGGAGGGTTCAACTCTGAGACGAGAACTGCCTTGGTGAAGGCAAGTTCAAGCACCACTTGAGACTGGGGGCAGCATGGAGTAGGGCAGGG
CTACGGGGATACACGGTGCACCCTGCAACTTATACCTGAGCCCAGTACAACAAAGGTGACGGGTGTGTAGGTACACACCCAGAGATGGAG
CACTGCAGATCAGCAACCTCAGCCCCACCTGGGAATTTGCTGGAAATGCAGGCTCAAGCCCCTCCCCACACCTGGTGAATGAGAGAGCCC
CAGCCTGACCCAAGCCCAGGGCGACTCCCATACCCTGAAGCCTGGGGCATGCTGGGCAGCACCGGTGCCCAAATCTGGCTGGTGGACAGA
AGCACCTGGAGAGTTGGAGAGCTTTTTAAAAAGACATCTCTCAGCACTTCCCTCTCTGCAGATTCTGACTCAGTAAGTGAGGGGTGAGGC
ACAGTCATTTTTCTCTATTCTGAAGCTCTCCCACTGTTTTCAATGTTTAACCAACTGGGGACCCCTGCTCTTTAAGTATATTACAGGTAA


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FusionGenePPI for RNF144B_LYRM4


check button Go to ChiPPI (Chimeric Protein-Protein interactions) to see the chimeric PPI interaction in

ChiPPI page

.

check button Protein-protein interactors with each fusion partner protein in wild-type (BIOGRID-3.4.160)
HgeneHgene's interactorsTgeneTgene's interactors
RNF144BUBE2L6, UBE2U, UBE2Z, UBE2L3, UBE2I, UBE2T, CDKN1A, BAX, ELAVL1, USP2, USP15, PAN2, TP63, SHMT2, MOV10, NXF1LYRM4PVRL2, ZWINT, HLA-DPB1, NDUFAB1, CDNF, NFS1, ISCU, LYRM4, FXN, IDE, NRD1, CHCHD2, PMPCA, PMPCB, HOGA1, DDAH1, ECH1, BCKDHA, C1QBP, KLHL22, GPX7


check button - Retained PPIs in in-frame fusion.
PartnerGeneHbpTbpENSTStrandBPexonTotalExonProtein feature loci*BPlociTotalLenStill interaction with


check button - Lost PPIs in in-frame fusion.
PartnerGeneHbpTbpENSTStrandBPexonTotalExonProtein feature loci*BPlociTotalLenInteraction lost with


check button - Retained PPIs, but lost function due to frame-shift fusion.
PartnerGeneHbpTbpENSTStrandBPexonTotalExonProtein feature loci*BPlociTotalLenInteraction lost with


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RelatedDrugs for RNF144B_LYRM4


check button Drugs targeting genes involved in this fusion gene.
(DrugBank Version 5.1.0 2018-04-02)
PartnerGeneUniProtAccDrugBank IDDrug nameDrug activityDrug typeDrug status

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RelatedDiseases for RNF144B_LYRM4


check button Diseases associated with fusion partners.
(DisGeNet 4.0)
PartnerGeneDisease IDDisease name# pubmedsSource
TgeneLYRM4C0036341Schizophrenia1PSYGENET
TgeneLYRM4C3810055COMBINED OXIDATIVE PHOSPHORYLATION DEFICIENCY 191UNIPROT